GitLab

The new Coveralls URI points to SVG so let us stick with a single format
for all badges.

The Coveralls URI need to contain the branch name for the badge to work,
moreover URIs for GitHub repositories are (now?) different. The URIs use
now both are what Coveralls Web site suggests and have been demonstrated
to work in case of ensembl-xref.

Registry: add support for versioned ensembl_metadata DBs [master]

appris method on Transcript

See ENSCORESW-3119. If both a versioned and an unversioned database are
present, use the versioned one if the version number matches that of the
software.

Store web_data without newlines

Changed attribute code length to 14 characters.

Add support for stop codon readthrough as a type of edit. 

Code updated to implement review comments. There is a new package to handle stop codon readthrough in a sequence. Test case has been updated with new regex

The previous test-database update missed some patches for the core and
variation schemas, which is why Travis jobs keep failing these days.

ENSCORESW-3110- Code to handle stop codon readthrough in 12 transcripts. The code edits the amino acid sequence to display the stop codon readthrough with an X

[ENSCORESW-3077] Travis: Unify configuration of Slack notifications

add feature_so_term to Slice.pm, as was added to Feature.pm

Patch test databases for release 97, part 2 [master]

Code updated to implement review comments. There is a new package to handle stop codon readthrough in a sequence. Test case has been updated with new regex

Merge remote-tracking branch 'origin/bugfix/e97_testdb_patches_master' into feature/stop_codon_readthrough_edit
This merge will update the schema to version 97 for feature/stop_codon_readthrough_edit

The previous test-database update missed some patches for the core and
variation schemas, which is why Travis jobs keep failing these days.

ENSCORESW-3110- Code to handle stop codon readthrough in 12 transcripts. The code edits the amino acid sequence to display the stop codon readthrough with an X

Add support for mature RNA products of transcripts (e.g. MicroRNA) to the API and schema

See ENSCORESW-3054. Only really affects the test suite at this point,
in the code proper the prefix only appears in docstrings.